Variant report

Variant	rs62575977
Chromosome Location	chr9:96909874-96909875
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96907184..96910536-chr9:96926813..96930142,4	MCF-7	breast:
2	chr9:96900996..96905420-chr9:96905582..96911723,7	K562	blood:
3	chr9:96909142..96911762-chr9:96912280..96913850,2	K562	blood:
4	chr9:96909599..96912003-chr9:96928176..96929680,2	K562	blood:
5	chr9:96909256..96912834-chr9:96914432..96917620,5	K562	blood:
6	chr9:96904365..96907195-chr9:96908218..96912337,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000269946	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10512231	0.93[ASN][1000 genomes]
rs10993068	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993069	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993090	0.81[ASN][1000 genomes]
rs10993094	0.81[ASN][1000 genomes]
rs11788788	0.96[ASN][1000 genomes]
rs12336926	0.95[ASN][1000 genomes]
rs12337981	0.96[ASN][1000 genomes]
rs12338333	0.96[ASN][1000 genomes]
rs12338885	0.81[ASN][1000 genomes]
rs12339587	0.96[ASN][1000 genomes]
rs12341175	0.96[ASN][1000 genomes]
rs12347752	0.81[ASN][1000 genomes]
rs12551579	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12551589	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13295163	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13439971	0.95[ASN][1000 genomes]
rs13440059	0.90[ASN][1000 genomes]
rs1421135	0.93[ASN][1000 genomes]
rs34582118	0.93[ASN][1000 genomes]
rs34765284	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36044301	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55881323	0.93[ASN][1000 genomes]
rs56006511	0.93[ASN][1000 genomes]
rs62575976	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62578777	0.96[ASN][1000 genomes]
rs62578780	0.93[ASN][1000 genomes]
rs62578801	0.81[ASN][1000 genomes]
rs7037996	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7041934	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7864156	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868381	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7871468	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873928	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
2	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96903000-96912000	Weak transcription	HepG2	liver
2	chr9:96903800-96910800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:96904000-96912800	Weak transcription	NH-A	brain
4	chr9:96904000-96927200	Weak transcription	Thymus	Thymus
5	chr9:96904400-96912600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr9:96904600-96913200	Weak transcription	Adipose Nuclei	Adipose
7	chr9:96904800-96910200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:96904800-96912000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:96904800-96912000	Weak transcription	Spleen	Spleen
10	chr9:96906800-96911000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:96907200-96910000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr9:96907200-96912200	Weak transcription	Fetal Muscle Leg	muscle
13	chr9:96907400-96913200	Weak transcription	Lung	lung
14	chr9:96908000-96910000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:96909000-96910600	Enhancers	NHEK	skin
16	chr9:96909400-96913000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr9:96909600-96910000	Weak transcription	Esophagus	oesophagus

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